ArticleRNA (New York, N.Y.)2009
Methodological obstacles in knocking down small noncoding RNAs.
Article in RNA (New York, N.Y.), 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
18 citing papers in PubMed, 31 citations in OpenAlex.
- C/D box snoRNA SNORD113-6/AF357425 plays a dual role in integrin signalling and arterial fibroblast function via pre-mRNA processing and 2'O-ribose methylation.Human molecular genetics · 2022Article
- RNA components of the spliceosome regulate tissue- and cancer-specific alternative splicing.Genome research · 2019Article
- The Functions of Long Non-Coding RNA during Embryonic Cardiovascular Development and Its Potential for Diagnosis and Treatment of Congenital Heart Disease.Journal of cardiovascular development and disease · 2019Review
- Small nucleolar RNA Sf-15 regulates proliferation and apoptosis of Spodoptera frugiperda Sf9 cells.BMC molecular biology · 2019Article
- Neuronal differentiation induces SNORD115 expression and is accompanied by post-transcriptional changes of serotonin receptor 2c mRNA.Scientific reports · 2018Article
- Transcription-factor-dependent enhancer transcription defines a gene regulatory network for cardiac rhythm.eLife · 2017Article
- RNase H1-Dependent Antisense Oligonucleotides Are Robustly Active in Directing RNA Cleavage in Both the Cytoplasm and the Nucleus.Molecular therapy : the journal of the American Society of Gene Therapy · 2017Article
- SNORA21 - An Oncogenic Small Nucleolar RNA, with a Prognostic Biomarker Potential in Human Colorectal Cancer.EBioMedicine · 2017Article
- Cellular localization of long non-coding RNAs affects silencing by RNAi more than by antisense oligonucleotides.Nucleic acids research · 2016Article
- Identification of novel long non-coding RNAs in clear cell renal cell carcinoma.Clinical epigenetics · 2015Article
- SnoRNA U50 levels are regulated by cell proliferation and rRNA transcription.International journal of molecular sciences · 2013Article
- Microvesicles/exosomes as potential novel biomarkers of metabolic diseases.Diabetes, metabolic syndrome and obesity : targets and therapy · 2012Article
- Biology and applications of small nucleolar RNAs.Cellular and molecular life sciences : CMLS · 2011Review
- Efficient and specific knockdown of small non-coding RNAs in mammalian cells and in mice.Nucleic acids research · 2011Article
- RNPomics: defining the ncRNA transcriptome by cDNA library generation from ribonucleo-protein particles.Nucleic acids research · 2010Article
- Cancer and inflammation: promise for biologic therapy.Journal of immunotherapy (Hagerstown, Md. : 1997) · 2010Review
- Nematode sbRNAs: homologs of vertebrate Y RNAs.Journal of molecular evolution · 2010Article
- miR-24 regulates apoptosis by targeting the open reading frame (ORF) region of FAF1 in cancer cells.PloS one · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the recent past, several thousand noncoding RNA (ncRNA) genes have been predicted within eukaryal genomes. However, for their functional analysis only a few high-throughput methods are currently available to knock down selected ncRNA species, such as microRNAs, which are targeted by antisense probes, termed antagomirs. We thus compared the efficiencies of four knockdown strategies, previously mainly employed for the analysis of protein-coding genes, to study the function of ncRNAs, in particular, small nucleolar RNAs (snoRNAs). Thereby, the class of snoRNAs represents one of the most abundant ncRNA species. The majority of snoRNAs has been shown to mediate nucleotide modifications by targeting ribosomal RNAs (rRNAs) through complementary antisense elements. However, some snoRNAs, termed "orphan snoRNAs," lack telltale complementarities to rRNAs and thus their function remains elusive. We therefore applied RNA interference (RNAi), locked nucleic acid (LNA), or peptide nucleic acid antisense approaches, as well as a ribozyme-based strategy to knock down a snoRNA. As a proof of principle, we targeted the canonical U81 snoRNA, which has been shown to mediate modification of nucleotide A(391) within eukaryal 28S rRNA. Our results demonstrate that while RNAi is an unsuitable tool for snoRNA knockdown, a ribozyme-based strategy, as well as an LNA-antisense oligonucleotide approach, resulted in a decrease of U81 snoRNA expression levels up to 60%. However, no concomitant decrease in enzymatic activity of U81 snoRNA was observed, indicating that improvement of more efficient knockdown techniques for ncRNAs will be required in the future.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.